I mean, in general, there shouldn't be situations that are described as "mistakenly asserting rights". But as you say, the alignment and incentives are opposed, and it's too easy, not better, for companies to choose the path of least resistance, rights be damned.
Also, companies in particular have lawyers whose entire full time job is to know when to tell the government to “stuff it” (though usually in much classier terms). Apple famously did this with the FBI: https://en.wikipedia.org/wiki/Apple–FBI_encryption_dispute